Table 1

Comparison of mapping efficiencies and estimation of methylation levels in various genomic contexts

BatMeth (%)

Bismark (%)



Mapping efficiency

CG

CHG

CHH

Mapping efficiency

CG

CHG

CHH

Oracle BS rate (%)


94.2

0.0

0.0

0.0

91.1

0.0

0.0

0.0

0.0

94.0

10.0

10.0

10.0

92.1

10.0

10.0

10.0

10.0

93.9

20.0

20.0

20.0

92.4

20.0

20.1

20.0

20.0

93.8

30.0

30.0

30.0

92.5

29.9

30.0

30.0

30.0

93.6

39.9

40.0

40.0

92.5

40.0

40.0

40.0

40.0

93.5

50.0

50.0

50.0

92.6

50.0

50.0

50.0

50.0

93.4

60.0

60.0

60.0

92.6

60.0

60.1

60.0

60.0

93.2

70.0

70.0

70.0

92.7

70.0

70.0

70.0

70.0

93.0

79.9

80.0

80.0

92.6

79.9

80.0

80.0

80.0

92.8

90.0

90.0

90.0

92.6

90.1

90.0

90.0

90.0

92.6

100

100.0

100.0

92.6

100.0

100.0

100.0

100.0


Methylation levels in various genomic contexts, such as CG, CHG and CHH (H is A/C/T only), are called by BatMeth and Bismark and validated against the oracle bisulfite rate used in Sherman.

Lim et al. Genome Biology 2012 13:R82   doi:10.1186/gb-2012-13-10-r82

Open Data